Hello,
I am trying to build a costumed database, including all reference genomes of fungi, bacteria, archaea, viruses, and Homo sapiens.
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38 results in 0.0057 seconds.
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AzizNasr started a topic Kraken2 - unmapped sequences during the first step of building the databasein MetagenomicsKraken2 - unmapped sequences during the first step of building the database
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How to use ARB nifH database(Zehr et. al) for taxonomic assignment
Hello members,
I am new in metagenomics data analysis. Currently I am working on a nifH amplicon data. I have done quality filtering, merging and... -
Choice of submitting DNA sequences to GenBank versus ENA Sequence
BACKGROUND:
As most of you are aware, three large, international sequence repositories accept submissions of DNA sequence data: DDBJ [1], ENA Sequence... -
NCBI-Blast Database Error. I NEED to create .nal file
Hello,
So I am making my own databases from fasta files using Blast version ncbi-blast-2.5.0+.dmg and getting an error that is linking... -
Database of human gut bacteria
Hi,
I have a list of bacteria (from cazy.org) and I need to know which of those are human gut bacteria, so that I could filter the list.... -
Custom database for metagenomics
I am trying to analyze some environmental metagenomic samples. I would compare functional abundances between the samples for some genes of my interest,... -
Issue with BLAST database path!
Hi all,
I downloaded BLAST+ together with the env_nt pre-formatted database. All database files are under ../ncbi-blast-2.3.0+/db/env folder... -
Postdoctoral Scholar: Forest Genomics Database and Software Developer
Title: Postdoctoral Scholar: Forest Genomics Database and Software Developer
Location: University of Connecticut, Storrs, CT, USA
...Last edited by jwegrzyn; 06-21-2016, 03:12 PM. -
Selecting the best database for blasting
Dear colleagues,
I recently asked a laboratory how they extended annotations on a transcriptome for a non-model organism; they pointed... -
Confusion about NOG, COG, ENOG, eggNOG numbers.
Disclaimer: I have already searched this thread and links therein: http://seqanswers.com/forums/showthread.php?t=35035
I know there is... -
Pathogen and Probiotics database of 16S rRNA
Hi all,
I want to use 16S rRNA reference that has clinical information such as pathogenetic and probiotic information.
What is the... -
Where can I find rRNA databases?
The only rRNA database I know is SILVA, but it only contains 16S/18S and 23S/28S rRNAs
What are some other rRNA database suggestions? -
Database schema/data model for sequencing methods
Does anybody know about a database, database schema, data model, etc., for modeling information about next gen sequencing methods or experiments?
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error generating database in snpEFF
hi all,
I am trying to use snpEff (http://snpeff.sourceforge.net/).
when i try to build my genomedatabse, I keep... -
Count BLAST hits and 'no hits'
I'm performing local blastn.
My query file consists in 20 sequences, and I have my own databases (DB) created out of several short reads Illumina...
